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Expression data from glioblastoma surgical specimens

ABSTRACT: Expression data from glioblastoma surgical specimens

PROVIDER: PRJNA741898 | ENA |

REPOSITORIES: ENA

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Expression data from glioblastoma surgical specimens

Project description:Surgical resection is the first choice of the standardized treatment scheme for glioblastoma and is performed under general anesthesia. Previous researches have shown that propofol and sevoflurane have different effects on the biological process of glioma cells from the molecular level. Some of them, for instance, control the glioma cell proliferation, invasion and migration In vitro or In vivo. We used mRNA microarray to discuss the effects of propofol and sevoflurane on gene expression in patients with glioblastoma. The correlation between DEGs and patients’ prognosis was further analyzed.

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Project description:The behavior of breast cancers and their response to neoadjuvant systemic therapy depend on their phenotype which is to a large extent determined by gene expression programs within the cancer cell. The purpose of the analysis was to compare matched gene expression profiles of pretreatment cancer with post-neoadjuvant systemic therapy, residual cancer. Pre-treatment FNA from primary tumors or post-treatment surgical specimens were obtained and RNA extracted and hybridized to afymetrix microarrays according to manufacturer protocol.

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Expression data from glioblastoma tissue

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Concordance of DNA methylation profiles between breast core biopsy and surgical excision specimens containing ductal carcinoma in situ (DCIS)

Project description:Whether DNA methylation in ductal carcinoma in situ (DCIS), measured in core biopsy and surgical specimens are similar, remains unclear. Here, we compared genome-scale DNA methylation measured in matched core biopsy and surgical specimens from DCIS, including specific DNA methylation biomarkers of subsequent invasive cancer. This study aims to compare genome-scale DNA methylation between core biopsies (in this GEO accession) and surgical specimens (previously published in GSE66313; see Overall Design below). Within-subject variability in DNA methylation was significantly lower than between-subject variability (all P < 2.20E-16). In 641 CpGs whose methylation was related with increased hazard of invasive breast cancer, lower within-subject than between-subject variability was observed in 92.3% of the study participants (P < 0.05). Between patient-matched core biopsy and surgical specimens, < 0.6% of CpGs measured had changes in median DNA methylation > 15%, and a pathway analysis of these CpGs indicated enrichment for genes related with wound healing. Our results indicate that DNA methylation measured in core biopsies are representative of the matched surgical specimens and suggest that DCIS biomarkers measured in core biopsies can inform clinical decision-making.

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